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CIS-REGULATION

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  1. Region 'REG00000643'

Cis-regulatory Region

Name

Ci-Mesp -150bp/39bp

Short name

n/a

Region ID

REG00000643

Status

Curated

Origin

natural region from C. robusta formely Ciona int. type A

Type of Activity

regulatory_region
(extended_promoter)

Author

Lionel Christiaen (2010-04-15)

Annotator

Clara Degos (2010-07-12)

Curator

Delphine Dauga (2010-04-19)

View position in WashU

Description

This region is the Mesp190 minimal cis regulatory element. It contains Tbx6b/c, Lhx3 and Ets1/2 domains. Inactivation of TBx6b/c or Lhx3 domains can drive to a reduced expression of Ci-Mesp or ectopic expression.


JGI transcript model was taken as reference for the region s coordinates.

Name of the region in the paper : Mesp190 cis-regulatory element.

Hierarchy of Regulatory Regions

Regulated gene(s)

KH2012:KH.C3.100 (MESP2; MSGN1; PTF1A)

Construct(s) made to test this region

CONS00001632: p.Ci-Mesp -150bp/39bp>H2B:GFP

CONS00001633: p.Ci-Mesp -150bp/39bp>GPI:GFP

CONS00000613: pCi-Mesp -150bp/39bp::LacZ

Show in situ data
Overview of functional TF binding sites in this region

3,537,1603,537,348

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 Homeobox n/a ATTA [3,537,169 / 3,537,172]
2 Ets n/a GGAT [3,537,178 / 3,537,181]
3 T-Box n/a TATTTCGCC [3,537,181 / 3,537,189]
4 T-Box n/a AGGCGATAA [3,537,202 / 3,537,210]
5 Homeobox n/a TAAT [3,537,208 / 3,537,211]
6 T-Box n/a CGGCGATAA [3,537,230 / 3,537,238]
7 Homeobox n/a AACTAATTAGAC [3,537,242 / 3,537,253]
8 T-Box n/a TAGACACCT [3,537,249 / 3,537,257]
9 Homeobox n/a TAAT [3,537,268 / 3,537,271]
10 Homeobox n/a TAAT [3,537,274 / 3,537,277]
11 Homeobox n/a TAAT [3,537,297 / 3,537,300]

Sequence

Aniseed Coordinates: [3,537,160 / 3,537,348] on scaffold KhC3

The sequence was retrieved from the JGI v1.0 assembly using the sequence found in the paper.

Show sequence

Length: 189


CAACAAGTCATTAGCGACGGATATTTCGCCTTTGAAACTTAAAGGCGATAATGACTTTGC
CCGTTTCATGCGGCGATAAACGAACTAATTAGACACCTCCTACAGATATAATGGTAATTC
AGAATCGTGTGGTTATGTAATTCACAAAAACATTTTAACAAAACAGGTTGATTTGAAACT
TGTATTATG

Reference(s)

Davidson et al. (2005). Uncoupling heart cell specification and migration in the simple chordate Ciona intestinalis. Development 132(21):4811-8

Palmquist et al. (2017). Establishment of lateral organ asymmetries in the invertebrate chordate, . Evodevo 8():12

Christiaen et al. (2009). Spatio-temporal intersection of Lhx3 and Tbx6 defines the cardiac field through synergistic activation of Mesp. Dev. Biol. 328(2):552-60

Christiaen et al. (2010). BMP signaling coordinates gene expression and cell migration during precardiac mesoderm development. Dev. Biol. 340(2):179-87

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